GenVisR

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see GenVisR.

Genomic Visualizations in R

Bioconductor version: 3.21

Produce highly customizable publication quality graphics for genomic data primarily at the cohort level.

Author: Zachary Skidmore [aut, cre], Alex Wagner [aut], Robert Lesurf [aut], Katie Campbell [aut], Jason Kunisaki [aut], Obi Griffith [aut], Malachi Griffith [aut]

Maintainer: Zachary Skidmore <zlskidmore at gmail.com>

Citation (from within R, enter citation("GenVisR")):

Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("GenVisR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("GenVisR")

GenVisR: An introduction HTML R Script

waterfall: function introduction HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Classification, DNASeq, DataRepresentation, Infrastructure, Software

Version 1.39.0

In Bioconductor since BioC 3.3 (R-3.3) (9.5 years)

License GPL-3 + file LICENSE

Depends R (>= 3.3.0), methods

Imports AnnotationDbi, biomaRt(>= 2.45.8), BiocGenerics, Biostrings, DBI, GenomicFeatures, GenomicRanges(>= 1.25.4), ggplot2 (>= 2.1.0), gridExtra (>= 2.0.0), gtable, gtools, IRanges(>= 2.7.5), plyr (>= 1.8.3), reshape2, Rsamtools, scales, viridis, data.table, BSgenome, GenomeInfoDb, VariantAnnotation

System Requirements

URL

Bug Reports https://github.com/griffithlab/GenVisR/issues

Suggests BiocStyle, BSgenome.Hsapiens.UCSC.hg19, knitr, RMySQL, roxygen2, testthat, TxDb.Hsapiens.UCSC.hg19.knownGene, rmarkdown, vdiffr, formatR, TxDb.Hsapiens.UCSC.hg38.knownGene, BSgenome.Hsapiens.UCSC.hg38

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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package GenVisR_1.39.0.tar.gz

Windows Binary (x86_64)

macOS Binary (x86_64) GenVisR_1.39.0.tgz

macOS Binary (arm64) GenVisR_1.39.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/GenVisR

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GenVisR

Bioc Package Browser https://code.bioconductor.org/browse/GenVisR/

Package Short Url https://bioconductor.org/packages/GenVisR/

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